Table 1

Significant KEGG identifiers detected based on the differentially expressed transcripts in cluster 1 for the acute phase response to E. coli infection*

KEGG ID

P value

Odds Ratio

Exp Count

Count

Size

Term


4062

2.98E-09

5.571349

5.027606

22

106

Chemokine signaling pathway

4620

4.87E-06

6.066348

2.513803

12

53

Toll-like receptor signaling pathway

4670

2.71E-05

4.568835

3.414978

13

72

Leukocyte transendothelial migration

4060

9.62E-05

3.722762

4.363583

14

92

Cytokine-cytokine receptor interaction

4650

0.000254

4.473538

2.656094

10

56

Natural killer cell mediated cytotoxicity

4514

0.000518

3.714061

3.414978

11

72

Cell adhesion molecules (CAMs)

4622

0.000743

5.504747

1.565198

7

33

RIG-I-like receptor signaling pathway

4666

0.000873

4.103185

2.561233

9

54

Fc gamma R-mediated phagocytosis

4662

0.001521

4.767827

1.754919

7

37

B cell receptor signaling pathway

4612

0.002095

4.468453

1.84978

7

39

Antigen processing and presentation

4920

0.002438

4.332374

1.89721

7

40

Adipocytokine signaling pathway

4210

0.002843

3.718903

2.466373

8

52

Apoptosis

4610

0.00426

3.861615

2.086931

7

44

Complement and coagulation cascades

3050

0.00727

3.941793

1.754919

6

37

Proteasome

4630

0.00791

2.831847

3.509838

9

74

Jak-STAT signaling pathway

5340

0.008959

5.797582

0.853744

4

18

Primary immunodeficiency

564

0.046285

3.241129

1.375477

4

29

Glycerophospholipid metabolism

5200

0.04726

1.759624

7.778561

13

164

Pathways in cancer


*A hypergeometric gene set enrichment test was performed based on cluster 1 of the contrast T24 vs. C24. Overrepresentation of gene sets defined by the KEGG database was tested using the Fisher's exact test. A gene set was considered significant if P < 0.05.

Buitenhuis et al. BMC Genomics 2011 12:130   doi:10.1186/1471-2164-12-130

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